"Provide a bunch of test fixtures for pynpact testing"

import logging

import pytest

from path import path

from pynpact import parsing, executors

@pytest.fixture(scope="module", autouse=True)

def setup_logging():

logging.root.setLevel(logging.DEBUG)

logging.basicConfig()

TESTGBK = "testdata/NC_017123.gbk"

TESTFNA = "testdata/NC_017123.fna"

TESTRAW = "testdata/NC_017123.raw"

@pytest.fixture()

def executor():

return executors.InlineExecutor()

@pytest.fixture()

def gbkfile():

gbk = path(__file__).dirname().joinpath(TESTGBK)

assert gbk.exists()

return str(gbk)

@pytest.fixture()

def gbkconfig(gbkfile, tmpdir):

return parsing.initial(gbkfile, outputdir=str(tmpdir))

@pytest.fixture()

def fnafile():

fna = path(__file__).dirname().joinpath(TESTFNA)

assert fna.exists()

return str(fna)

@pytest.fixture()

def fnaconfig(fnafile, tmpdir):

return parsing.initial(fnafile, outputdir=str(tmpdir))

@pytest.fixture()

def rawfile():

raw = path(__file__).dirname().joinpath(TESTRAW)

assert raw.exists()

return str(raw)

@pytest.fixture()

def rawconfig(rawfile, tmpdir):

return parsing.initial(rawfile, outputdir=str(tmpdir))